Gene detail

Detailed information of OS493_010335-T1 in Lophelia pertusa

Genomic Location: scaffold_25:1123025...1132728
NR annotation: KAJ7392684.1, Glycogen synthase kinase-3 beta [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P49841	Glycogen synthase kinase-3 beta OS=Homo sapiens OX=9606 GN=GSK3B PE=1 SV=2
Q9WV60	Glycogen synthase kinase-3 beta OS=Mus musculus OX=10090 GN=Gsk3b PE=1 SV=2
P18266	Glycogen synthase kinase-3 beta OS=Rattus norvegicus OX=10116 GN=Gsk3b PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006783 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008271 all species →	Active_site	Serine/threonine-protein kinase, active site	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR050591 all species →	Family	Glycogen Synthase Kinase-3	Interproscan
IPR039192 all species →	Domain	Glycogen synthase kinase 3, catalytic domain	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24057 all species →	GLYCOGEN SYNTHASE KINASE-3 ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0030424 all species →	Cellular Component	axon	Interproscan
GO:0090090 all species →	Biological Process	negative regulation of canonical Wnt signaling pathway	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K08822	GSK3A; glycogen synthase kinase 3 alpha	EC:2.7.11.26	Protein kinases	ko01001	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_010335-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

144.0Max TPM

55.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	48.44	70.18
polyp at pH7 6	18	18	54.02	70.04
coral polyp · control treatment	16	16	70.52	144.05
coral polyp · oil and dispersant treatment	16	16	63.18	93.37
coral polyp · oil treatment	16	16	61.06	92.49
coral polyp · dispersant treatment	16	16	43.92	77.11
Polyp	10	10	46.75	87.46

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.18
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.80
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.90
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.78
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.08
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.55
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.36
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.18
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.37
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.14
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.52
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.07
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.33
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.97
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.50
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	144.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.63
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.06
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.11
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.32
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.88
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.25
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.37
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.64
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.84
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.52
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.58
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.17
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.81
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.28
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.56
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.91
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.89
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.78
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.90
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.83
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.14
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	87.46
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	66.07
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	59.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	52.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	41.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	38.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	35.18
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	35.10
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	25.85
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.63

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.